User:Karmella Haynes: Difference between revisions

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==Contact Info==
==Contact Info==
[[Image:KHaynes0609.jpg|thumb|400px|right|Photograph © 2009 WGBH Educational Foundation]]
[[Image:SBHSE_lab_KHaynes_0212.jpg|thumb|500px|right|Photograph © 2012 Jessica Slater, ASU News]]


<b>Dr. Karmella A. Haynes, Ph.D.</b><br>
'''Karmella A. Haynes'''<br>
Harvard Medical School<br>
Arizona State University<br>
Department of Systems Biology<br>
School of Biological and Health Systems Engineering<br>
200 Longwood Ave. WAB 536<br>
501 E Tyler Mall<br>
Boston, MA 02115
ECG 346, Box 9709<br>
Tempe, AZ 85287


phone: 617-432-6406<br>
phone: 480-965-4636<br>
fax: 617-432-5012
fax: 480-727-7624<br>


karmella_haynes at hms dot harvard dot edu<br>
karmella.haynes at asu dot edu
karmella.haynes at asu dot edu


==Positions==
==Positions==
* 2011 (pending), Assistant Professor, School of Biological and Health Systems Engineering, Arizona State University
* 2011, Assistant Professor, School of Biological and Health Systems Engineering, Arizona State University


==Education==
==Education==
<!--Include info about your educational background-->
<!--Include info about your educational background-->
* 2008 - 2011, NIH NRSA Postdoctoral research fellow in Synthetic Biology, Harvard Medical School
* 2008 - 2011, NIH NRSA Postdoctoral research fellow in Synthetic Biology, Harvard Medical School
* 2006-2008, HHMI Postdoctoral research/ teaching fellow in Synthetic Biology, Davidson College
* 2006 - 2008, HHMI Postdoctoral research/ teaching fellow in Synthetic Biology, Davidson College
* 2006, Ph.D. in Molecular Genetics, Washington University in St. Louis
* 2006, Ph.D. in Molecular Genetics, Washington University in St. Louis
* 1999, B.S. in Biology, Florida A&M University
* 1999, B.S. in Biology, Florida A&M University


==Links==
==Links==
'''Karmella's Links'''<br>
'''Lab Links'''<br>
<b>Haynes Lab at Arizona State University</b> (coming soon)<br>
<b>[http://openwetware.org/wiki/Haynes_Lab Haynes Lab OpenWetWare Site]</b><br>
<b>[http://openwetware.org/wiki/User:Karmella_Haynes/Notebook Lab Notebook]</b><br>
<b>[http://haynes.lab.asu.edu Haynes Lab at Arizona State University]</b><br>
<b>[http://www.gcat.org Genome Consortium For Active Teaching]</b><br>
<b>[http://openwetware.org/wiki/User:Karmella_Haynes/Notebook Openwetware Lab Notebook]</b><br>
 
 
'''Course Links'''<br>
<b>[http://openwetware.org/wiki/User:Karmella_Haynes/BME494_ProjectTemplate Molecular Synthetic Biology Project Template]</b><br>




'''2010 Harvard iGEM Team'''<br>
'''iGEM Teams'''<br>
<b>[http://openwetware.org/wiki/IGEM:Harvard/2010 Team Wiki]</b><br>
<b>[http://openwetware.org/wiki/IGEM:Harvard/2010 Harvard 2010 iGEM Team Wiki]</b><br>
<b>[http://harvardigem.org/ Harvard iGEM Blog]</b><br>
<b>[http://harvardigem.org/ Harvard 2010 iGEM Blog]</b><br>
<b>[http://openwetware.org/wiki/IGEM:ASU/2011 ASU 2011 iGEM Team Wiki]</b><br>




'''Synthetic Biology Organizations'''<br>
<b>[http://www.gcat.org Genome Consortium For Active Teaching]</b><br>




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<!-- Feel free to add brief descriptions to your research interests as well -->
<!-- Feel free to add brief descriptions to your research interests as well -->
'''Synthetic Biology'''<br>
'''Synthetic Biology'''<br>
The field of synthetic biology aims to engineer tiny machines, fashioned from characterized DNA and protein components, that perform useful functions, like synthesizing useful metabolites, attacking tumors, and detecting compounds in the environment. Currently as a postdoc in the lab of Pam Silver at Harvard Medical School, I am exploring the use of eukaryotic proteins as modular parts that can be used to build rationally designed devices in living cells.
The field of synthetic biology aims to engineer tiny machines, fashioned from characterized DNA and protein components, that perform useful functions, like synthesizing useful metabolites, attacking tumors, and detecting compounds in the environment. My research lab explores the use of eukaryotic proteins as modular parts for building rationally designed devices in living cells.  
 
'''Building Devices to Sense Developmental Cues'''<br>
So far, scientists have shown that molecular biology can be reconstructed to perform potentially useful tasks such as toggle switching, oscillation, pulsing, signal inversion, and multi-input processing. I am interested in developing simple modules that can feed useful biological information into these systems so that a device becomes activated or deactivated in response to developmental changes or disease. Two cellular cues that I am focusing on currently are miRNA expression and chromatin modification. Synthetic devices that can read cellular cues and generate therapeutic outputs (RNA, enzymes, etc.) will be a powerful tool for medicine.


'''Chromatin, An Untapped Resource for Parts'''<br>
'''Chromatin, An Untapped Resource for Parts'''<br>
Nature provides an abundant source of functional proteins for designing new systems. To date, chromatin proteins remain an untapped resource. Chromatin proteins called "effectors" have the remarkable ability to discriminate and bind to  specific post-translational modifications of proteins called histones. Can a synthetic protein device be engineered to read histone modifications? Can we use this type of device as a new tool to monitor changes in histone modifications in single living cells? Accomplishing these goals will allow scientists to probe  histone modification at unprecedented resolution, thus furthering our understanding of the dynamics of histone modifications associated with cancer and normal cell development.
Nature provides an abundant source of functional proteins for designing new systems. To date, chromatin proteins are an untapped resource. A class of chromatin proteins, known as "effectors," have the remarkable ability to discriminate and bind to  specific post-translational modifications of target proteins called histones. Can a synthetic protein device be engineered to read histone modifications? Can we use this type of device as a new tool to monitor changes in histone modifications in single living cells? Accomplishing these goals will allow scientists to probe  histone modification at unprecedented resolution, thus furthering our understanding of the dynamics of histone modifications associated with cancer and normal cell development.


==Publicity==
==Publicity==
<b>[http://www.npr.org/templates/story/story.php?storyId=90769103 Calculating Bacteria: Real Computer Bugs?]</b><br>
<b>[http://www.npr.org/templates/story/story.php?storyId=90769103 Calculating Bacteria: Real Computer Bugs?]</b><br>
National Public Radio, Science Friday with Ira Flatow<br>
A group of scientists reports in the Journal of Biological Engineering that they have created specially modified E. coli bacteria capable of performing one specific type of calculation — a puzzle known as the "pancake flipping problem." Karmella Haynes, one of the researchers, discusses the prospects for biologically based computing, and ways in which calculating bacteria might be useful.<br>
A group of scientists reports in the Journal of Biological Engineering that they have created specially modified E. coli bacteria capable of performing one specific type of calculation — a puzzle known as the "pancake flipping problem." Karmella Haynes, one of the researchers, discusses the prospects for biologically based computing, and ways in which calculating bacteria might be useful.<br>




<b>[http://www.teachersdomain.org/resource/biot09.biotech.car.karmella/ Synthetic Biologist Karmella Haynes]</b><br>
<b>[http://www.teachersdomain.org/resource/biot09.biotech.car.karmella/ Synthetic Biologist Karmella Haynes]</b><br>
WBUR Teacher's Domain<br>
This video produced for Teachers' Domain profiles Karmella Haynes, a post-doctoral researcher working in the emerging field of synthetic biology. Karmella explains how she uses biotechnology to build living machines, or devices, from genes.
This video produced for Teachers' Domain profiles Karmella Haynes, a post-doctoral researcher working in the emerging field of synthetic biology. Karmella explains how she uses biotechnology to build living machines, or devices, from genes.


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==Publications==
==Publications==
# Haynes KA, Silver PA. (2011) Synthetic reversal of epigenetic silencing. J Chem Biol. E-pub ahead of print. PMID: 21669865
 
# Haynes KA, Silver PA. (2009) [[http://jcb.rupress.org/cgi/pmidlookup?view=long&pmid=19948487 Eukaryotic systems broaden the scope of synthetic biology]]. J Cell Biol. PMID: 19948487
<b>Research</b><br>
# Paper2 pmid=18492232
# Synthetic reversal of epigenetic silencing<br>Haynes KA, Silver PA. (2011) J Chem Biol. E-pub ahead of print. PMID: 21669865<br>'''Cover article'''<br><br>
# Paper3 pmid=18245350
# [http://www.jbioleng.org/content/2/1/8 Engineering bacteria to solve the burnt pancake problem]<br>Haynes KA, Broderick ML, Brown AD, Butner TL, Dickson JO, Harden WL, Heard LH, Jessen EL, Malloy KJ, Ogden BJ, Rosemond S, Simpson S, Zwack E, Campbell AM, Eckdahl TT, Heyer LJ, Poet JL. (2008)  J Biol Eng. PMID: 18492232<br><b>JBE Publication of the Year, 2008</b><br><br>
# Paper4 pmid=17194780
# [http://www.genetics.org/content/178/3/1177.long An investigation of heterochromatin domains on the fourth chromosome of Drosophila melanogaster]<br>Riddle N, Leung W, Haynes KA, Granok H, Wuller J, Elgin SC. (2008) Genetics. PMID: 18245350<br><br>
# Paper5 pmid=17113386
# [http://www.genetics.org/content/175/3/1539.long A distinct type of heterochromatin within Drosophila melanogaster chromosome four]<br>Haynes KA, Gracheva E, Elgin SC. (2006) Genetics. PMID: 17194780<br><br>
# Paper6 pmid=16117658
# [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1712676/?tool=pubmed Element 1360 and RNAi components contribute to HP1-dependent silencing of a pericentric reporter]<br>Haynes KA, Caudy AA, Collins L, Elgin SC. (2006) Current Biol. PMID: 17113386<br><br>
# cis-Acting determinants of heterochromatin formation on Drosophila melanogaster chromosome four<br>Sun FL, Haynes K, Simpson CL, Lee SD, Collins L, Wuller J, Eissenberg JC, Elgin SC. (2004) Mol Cell Biol. PMID: 15340080
 
<b>Reviews</b><br>
# [http://jcb.rupress.org/cgi/pmidlookup?view=long&pmid=19948487 Eukaryotic systems broaden the scope of synthetic biology]<br>Haynes KA, Silver PA. (2009)  J Cell Biol. PMID: 19948487<br><br>
# Analyzing heterochromatin formation using chromosome 4 of Drosophila melanogaster<br>Haynes KA, Leibovitch BA, Rangwala SH, Craig C, Elgin SC. (2004) CSHSQB. PMID: 16117658<br><br>


==Science Art Gallery==
==Science Art Gallery==

Latest revision as of 11:13, 14 April 2014

Contact Info

Photograph © 2012 Jessica Slater, ASU News

Karmella A. Haynes
Arizona State University
School of Biological and Health Systems Engineering
501 E Tyler Mall
ECG 346, Box 9709
Tempe, AZ 85287

phone: 480-965-4636
fax: 480-727-7624

karmella.haynes at asu dot edu

Positions

  • 2011, Assistant Professor, School of Biological and Health Systems Engineering, Arizona State University

Education

  • 2008 - 2011, NIH NRSA Postdoctoral research fellow in Synthetic Biology, Harvard Medical School
  • 2006 - 2008, HHMI Postdoctoral research/ teaching fellow in Synthetic Biology, Davidson College
  • 2006, Ph.D. in Molecular Genetics, Washington University in St. Louis
  • 1999, B.S. in Biology, Florida A&M University

Links

Lab Links
Haynes Lab OpenWetWare Site
Haynes Lab at Arizona State University
Openwetware Lab Notebook


Course Links
Molecular Synthetic Biology Project Template


iGEM Teams
Harvard 2010 iGEM Team Wiki
Harvard 2010 iGEM Blog
ASU 2011 iGEM Team Wiki


Synthetic Biology Organizations
Genome Consortium For Active Teaching




Research interests

Synthetic Biology
The field of synthetic biology aims to engineer tiny machines, fashioned from characterized DNA and protein components, that perform useful functions, like synthesizing useful metabolites, attacking tumors, and detecting compounds in the environment. My research lab explores the use of eukaryotic proteins as modular parts for building rationally designed devices in living cells.

Chromatin, An Untapped Resource for Parts
Nature provides an abundant source of functional proteins for designing new systems. To date, chromatin proteins are an untapped resource. A class of chromatin proteins, known as "effectors," have the remarkable ability to discriminate and bind to specific post-translational modifications of target proteins called histones. Can a synthetic protein device be engineered to read histone modifications? Can we use this type of device as a new tool to monitor changes in histone modifications in single living cells? Accomplishing these goals will allow scientists to probe histone modification at unprecedented resolution, thus furthering our understanding of the dynamics of histone modifications associated with cancer and normal cell development.

Publicity

Calculating Bacteria: Real Computer Bugs?
National Public Radio, Science Friday with Ira Flatow
A group of scientists reports in the Journal of Biological Engineering that they have created specially modified E. coli bacteria capable of performing one specific type of calculation — a puzzle known as the "pancake flipping problem." Karmella Haynes, one of the researchers, discusses the prospects for biologically based computing, and ways in which calculating bacteria might be useful.


Synthetic Biologist Karmella Haynes
WBUR Teacher's Domain
This video produced for Teachers' Domain profiles Karmella Haynes, a post-doctoral researcher working in the emerging field of synthetic biology. Karmella explains how she uses biotechnology to build living machines, or devices, from genes.




Publications

Research

  1. Synthetic reversal of epigenetic silencing
    Haynes KA, Silver PA. (2011) J Chem Biol. E-pub ahead of print. PMID: 21669865
    Cover article

  2. Engineering bacteria to solve the burnt pancake problem
    Haynes KA, Broderick ML, Brown AD, Butner TL, Dickson JO, Harden WL, Heard LH, Jessen EL, Malloy KJ, Ogden BJ, Rosemond S, Simpson S, Zwack E, Campbell AM, Eckdahl TT, Heyer LJ, Poet JL. (2008) J Biol Eng. PMID: 18492232
    JBE Publication of the Year, 2008

  3. An investigation of heterochromatin domains on the fourth chromosome of Drosophila melanogaster
    Riddle N, Leung W, Haynes KA, Granok H, Wuller J, Elgin SC. (2008) Genetics. PMID: 18245350

  4. A distinct type of heterochromatin within Drosophila melanogaster chromosome four
    Haynes KA, Gracheva E, Elgin SC. (2006) Genetics. PMID: 17194780

  5. Element 1360 and RNAi components contribute to HP1-dependent silencing of a pericentric reporter
    Haynes KA, Caudy AA, Collins L, Elgin SC. (2006) Current Biol. PMID: 17113386

  6. cis-Acting determinants of heterochromatin formation on Drosophila melanogaster chromosome four
    Sun FL, Haynes K, Simpson CL, Lee SD, Collins L, Wuller J, Eissenberg JC, Elgin SC. (2004) Mol Cell Biol. PMID: 15340080

Reviews

  1. Eukaryotic systems broaden the scope of synthetic biology
    Haynes KA, Silver PA. (2009) J Cell Biol. PMID: 19948487

  2. Analyzing heterochromatin formation using chromosome 4 of Drosophila melanogaster
    Haynes KA, Leibovitch BA, Rangwala SH, Craig C, Elgin SC. (2004) CSHSQB. PMID: 16117658

Science Art Gallery

In addition to science research, I paint and draw. Below are pieces that have a scientific theme. You can view my other work at http://www.karmellahaynes.com

  • Tessellation of Drosophila Heads, 2006

    Tessellation of Drosophila Heads, 2006

  • "Metastasis" cells invading a paint pallette, 2005

    "Metastasis" cells invading a paint pallette, 2005

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